Ddx6 MGI Mouse Gene Detail - MGI:104976

Symbol

Ddx6
Name

DEAD-box helicase 6
Synonyms

1110001P04Rik, C430015D01Rik, DEAD (Asp-Glu-Ala-Asp) box polypeptide 6, E230023J21Rik, HLR2, mRCK/P54, p54, rck

Feature Type

protein coding gene
IDs

MGI:104976
NCBI Gene: 13209
Alliance

gene page
Transcription Start Sites

13 TSS

Sequence Map

Chr9:44516189-44552028 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 9, 24.84 cM, cytoband B
Mapping Data

4 experiments

SNPs within 2kb

772 from dbSNP Build 142
Strain Annotations

17
RFLP

2

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_104976	protein coding gene	Chr9:44514113-44552028 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0034714	protein coding gene	Chr9:43113748-43154555 (+)
A/J	MGP_AJ_G0034695	protein coding gene	Chr9:41901568-41937510 (+)
AKR/J	MGP_AKRJ_G0034622	protein coding gene	Chr9:42781771-42816513 (+)
BALB/cJ	MGP_BALBcJ_G0034686	protein coding gene	Chr9:41649236-41685368 (+)
C3H/HeJ	MGP_C3HHeJ_G0034397	protein coding gene	Chr9:43225312-43264014 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0035207	protein coding gene	Chr9:44386024-44419678 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0032122	protein coding gene	Chr9:41478159-41511922 (+)
CAST/EiJ	MGP_CASTEiJ_G0033719	protein coding gene	Chr9:43080691-43122102 (+)
CBA/J	MGP_CBAJ_G0034369	protein coding gene	Chr9:46008609-46047228 (+)
DBA/2J	MGP_DBA2J_G0034528	protein coding gene	Chr9:41805562-41840752 (+)
FVB/NJ	MGP_FVBNJ_G0034469	protein coding gene	Chr9:41068202-41106794 (+)
LP/J	MGP_LPJ_G0034609	protein coding gene	Chr9:43412809-43446916 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0034513	protein coding gene	Chr9:47844174-47887477 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0035228	protein coding gene	Chr9:42688949-42725081 (+)
PWK/PhJ	no annotation
SPRET/EiJ	MGP_SPRETEiJ_G0033259	protein coding gene	Chr9:42999118-43033150 (+)
WSB/EiJ	MGP_WSBEiJ_G0033832	protein coding gene	Chr9:42715729-42751118 (+)

Human Ortholog

DDX6, DEAD-box helicase 6

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

DDX6, DEAD-box helicase 6
Synonyms

HLR2, IDDILF, P54, RCK, Rck/p54
Links

HGNC:2747

NCBI Gene ID: 1656

neXtProt AC: NX_P26196

UniProt: P26196
Chr Location

11q23.3; chr11:118747763-118791744 (-) GRCh38

MGI Vertebrate Homology

Ddx6 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: DDX6
Gene Tree

Ddx6

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Phenotype Summary

29 phenotypes from 3 alleles in 3 genetic backgrounds
16 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

92
Endonuclease-mediated

6
Gene trapped

84
Targeted

2
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

61 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice exhibit lethality prior to E11.5, decreased embryo size, embryonic growth retardation, caudal body truncation, and delayed primitive streak formation.

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All GO Annotations

43
GO References

13

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	non-membrane-bounded organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

762
Tissues

15
cDNA Data

122
Literature Summary

20

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase ddx6

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All Sequences

51
RefSeq

14
UniProt

1
CCDS

CCDS23116.1

Ensembl

ENSMUSG00000032097 (Evidence)
NCBI Gene

13209

			Length	Strain/Species	Flank
genomic	ENSMUSG00000032097	Ensembl Gene Model \| MGI Sequence Detail	35840	C57BL/6J	± kb
transcript	ENSMUST00000217034	Ensembl \| MGI Sequence Detail	6029	Not Applicable
polypeptide	ENSMUSP00000149620	Ensembl \| MGI Sequence Detail	483	Not Applicable

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UniProt

1 Sequence
Protein Ontology

PR:000029398 probable ATP-dependent RNA helicase DDX6

(term hierarchy)
EC

3.6.4.13
InterPro Domains

IPR000629 ATP-dependent RNA helicase DEAD-box, conserved site

IPR011545 DEAD/DEAH box helicase domain

IPR001650 Helicase, C-terminal domain-like

IPR014001 Helicase superfamily 1/2, ATP-binding domain

IPR027417 P-loop containing nucleoside triphosphate hydrolase

IPR014014 RNA helicase, DEAD-box type, Q motif
GlyGen

P54823 1 site, 1 O-linked glycan (1 site)

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All nucleic 142

Genomic 10

cDNA 124

Primer pair 5

Other 3

Microarray probesets 6

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MGD-MRK-31049, MGI:1923546, MGI:1925955, MGI:2444175

Summaries

All 78

Developmental Gene Expression 20

Gene Ontology 13

Phenotypes 16
Earliest

J:30308 Seto M, et al., Cloning and expression of a murine cDNA homologous to the human RCK/P54, a lymphoma-linked chromosomal translocation junction gene on 11q23. Gene. 1995 Dec 12;166(2):293-6
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Ddx6:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr84680	Chr9:44514991-44515016 (+)	-1,185 bp
Tssr84681	Chr9:44515073-44515087 (+)	-1,109 bp
Tssr84682	Chr9:44515369-44515384 (+)	-812 bp
Tssr84683	Chr9:44515961-44515997 (+)	-210 bp
Tssr2845	Chr9:44516006-44516011 (+)	-180 bp
Tssr84684	Chr9:44516141-44516218 (+)	-9 bp
Tssr84685	Chr9:44516230-44516247 (+)	50 bp
Tssr84686	Chr9:44518239-44518244 (+)	2,053 bp
Tssr84687	Chr9:44518789-44518795 (+)	2,603 bp
Tssr84688	Chr9:44519832-44519841 (+)	3,648 bp
Tssr84689	Chr9:44542229-44542233 (+)	26,042 bp
Tssr84690	Chr9:44550010-44550017 (+)	33,825 bp
Tssr84691	Chr9:44550445-44550455 (+)	34,261 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 10/29/2024 MGI 6.24